PXD013274

PXD013274 is an original dataset announced via ProteomeXchange.

Title	Marine Proteobacteria metabolise glycolate via the β-hydroxyaspartate cycle
Description	One of the most abundant organic carbon sources in the ocean is glycolate, a compound that is commonly secreted by marine phytoplankton resulting in an estimated annual flux of one petagram of glycolate in marine environments. While it is generally accepted that glycolate is oxidized to glyoxylate by marine bacteria, the further fate of this C2 metabolite is not well understood. Here we show that ubiquitous marine Proteobacteria are able to assimilate glyoxylate via the  hydroxyaspartate cycle (BHAC) that was originally proposed 56 years ago. We unravel the biochemistry of the BHAC and describe the structure of its key enzymes, including a previously unknown primary imine reductase. Overall, the BHAC allows for the direct production of oxaloacetate from glyoxylate through only four enzymatic steps, representing the most efficient glyoxylate assimilation route described to date. Analysis of marine metagenomes shows that the BHAC is globally distributed and on average 20-fold more abundant than the glycerate pathway, the only other known pathway for net glyoxylate assimilation. In a field study on a phytoplankton bloom, we show that glycolate is present in high nanomolar concentrations and taken up by prokaryotes at rates that allow a full turnover of the glycolate pool within one week. During the bloom, the BHAC is present in up to 1.5% of the bacterial community and actively transcribed, supporting its role in glycolate assimilation and suggesting a new trophic interaction between autotrophic phytoplankton and heterotrophic bacterioplankton.
HostingRepository	PRIDE
AnnounceDate	2019-10-11
AnnouncementXML	Submission_2019-10-11_05:40:00.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD013274
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Timo Glatter
SpeciesList	scientific name: Paracoccus denitrificans PD1222; NCBI TaxID: 318586;
ModificationList	Oxidation; Carbamidomethyl
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-03-28 01:10:21	ID requested
1	2019-08-14 04:42:10	announced
⏵ 2	2019-10-11 05:40:01	announced	2019-10-11: Updated project metadata.

Dataset with its publication pending

curator keyword: Biological

submitter keyword: Paracoccus denitrificans

Tobias Juergen Erb
contact affiliation	Department of Biochemistry and Synthetic Metabolism, Max Planck Institute for terrestrial Microbiology, Marburg, Germany
contact email	toerb@mpi-marburg.mpg.de
lab head
Timo Glatter
contact affiliation	MPI Marburg
contact email	glatter@mpi-marburg.mpg.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2019/08/PXD013274

PRIDE project URI

• PRIDE
  1. PXD013274
     1. Label: PRIDE project
     2. Name: Marine Proteobacteria metabolise glycolate via the β-hydroxyaspartate cycle